Updated: Fri Jan 9 17:51:42 2015

Figure 1: Summary

Figure 1a: Experimental design overview

Figure 1b: Comparisons setup

Figure 1c: UMRs and DE genes between MZ twins and neurospheres

  • No. of UMRs (hypermethylated in red and hypomethylated in blue) between monozygotic twins and Cortex vs GE neurospheres.
  • No. of UMRs between MZ twins are on the same scale as UMRs between neurospheres.

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Figure 1d: UMRs and DE genes between neurospheres accumulates over time

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Figure 1e: UMRs and DE genes between GW

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Figure 2: Neurospheres Cortex and GE

Figure 2a: TFBS asymmetry between neurosphere UMRs

Figure 2b: GREAT enrichment for neurospheres UMRs

Figure 3: Stage-specific differential expression

Figure 3a: Stage-specific differential expression summary

Figure 3b: Stage-specific differential expression trend - shared

Figure 3c: Stage-specific differential expression trend - cortex

Figure 3d: Stage-specific differential expression trend - GE

Figure 3e: Stage-specific differential expression heatmap

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Supplemental Figures

Supplemental 1: Asymmetry in UMRs

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Supplemental 2: Genomic breakdown of UMRs

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Supplemental 3: Fraction of DE genes with proximal UMRs

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Supplemental 4: Venn diagram of differential expressed genes between MZ and between GW

  • No. of differential expressed genes between MZ twins in Brain (green), Neurospheres Cortex derived (red), and GE derived (blue).

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Supplemental 5: DAVID enrichment for MZ DE genes

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Supplemental 6: Validate WGBS UMRs with MeDIP/MRE

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Supplemental 7: Location of UMRs across the genome

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Supplemental 8: Neurosphere UMR enrichemnt at chromosome ends

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Supplemental 9: DAVID enrichment for isoform genes

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Supplemental 10: TFBS asymmetry in MZ UMRs

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Supplemental 11: DNA methylation at exon boundaries

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Supplemental 12: DNA methylation at exon boundaries with MeDIP

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Supplemental 13: Expression of DNA methylation reulators

Supplemental 14: RNA-seq and miRNA-seq clustering

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Supplemental 15: miRNA

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Supplemental 16: GREAT for GW UMRs

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